Results for "Command lines"
Top-level pages
alignment: the mapping of a raw sequence read to a location within a reference genome. T...so BAM Format. SAMtools: widely used, open source command line tool for manipulating SA...ools distribution also includes bcftools, a set of comma...2862 days ago
Genome Assembly Tools and Software - PART1 !!
...assemblyManager – Computing the Robotic Commands for 2ab Assembly Clotho p...comparable to conventional mapping based pipelines (see evaluation in the tex...n bacterial en eukaryotic datasets. The command-line Perl script and additi...2678 days ago
Source Code and Pseudo Code !!
An algorithm is a procedure for solving a problem in terms of the actions to be execut...e type of the data it returns. All of these listed items are to be on separate lines with spaces in between each e...2652 days ago
Perl Special Vars Quick Reference
...outine variables. @ARGV The command-line args. Regular Expre...t page length. $- Number of lines left on page. $~ Format n...e last pipe close, backtick (`` ) command, successful call to wait() or...;won't try to open the file. Command Line Args ARGV Fileha...2637 days ago
Awesome perl frameworks, libraries and software - PART 1
...nteractive console text-based command-line Twitter client written i...;- A Perl module and terminal command for generating secure memorab...ot your commit history on the command line with sparklines. A mash up of git and spark and...g site pssc/squeezy - A command-line utility for controllin...2482 days ago
Tools for bacterial whole genome annotation
RAST – Web tool (upload contigs), uses the subsystems in the SEED database and provides detaile...you have only a few genomes to annotate). Prokka – Standalone comma...2324 days ago
- There are several ways you can convert fastq...d can be used to selectively print the desired lines from a file, so if you print the first and 2rd line of every 4 lines, you get the sequence header...
2298 days ago
PerlOneLiner for Bioinformatician
FILE SPACING------------ # Double sp...file so that every set of 10 lines becomes one tab-separated lin...$_" if /regex/' # Number all lines, but print line numbers only...minimum element over all the linesperl -MList::Util=min -alne '@...\t]+$//g' # Convert UNIX newlines to DOS/Windows newlinesperl -...2295 days ago
- To do sam to bam conversion, follow the following commands :- Code: $ samtools...amtools followed by the name of one of the samtools commands, you will get a few lines of help giving the correct syntax for that command,
2284 days ago
Linux Commands Cheat Sheet for Bioinformatics and Computational Biology Professionals
...p;— output the first 10 lines of file tail file — output the last 10 lines of file tail -f file &mdas...— edit file alias name 'command' — create an alias for a command System shutdown &mda...in files with .ext extension command | grep pattern —...2273 days ago
